Hi Joost, the precomputed tables only go up to 30mm FWHM. The 25 mm you apply adds to some that is already there to cause it to be 31mm, so the table does not exist. I would say that 25mm is a lot to smooth by. Do you really need that much? doug

j janssen wrote:

Hi,

• FS version: 5.1
• system: Linux neuro3 2.6.27.41-170.2.117.fc10.x86_64 #1 SMP Thu Dec

10 10:36:29 EST 2009 x86_64 x86_64 x86_64 GNU/Linux

• on-screen error output:

cmdline mri_glmfit --glmdir rh_thickness_men_20fwhm_asp_vs_con_controlling_for_IQ_AGE --y rh.thickness.fwhm20.men.age.iq.mgh --fsgd FSGD_1F3L_2C.txt dods --C asp_vs_con_controlling_for_IQ_AGE.txt --surface fsaverage rh SURFACE: fsaverage rh log file is rh_thickness_men_20fwhm_asp_vs_con_controlling_for_IQ_AGE/cache.mri_glmfit-sim.log

cd /home/neuro/asperger_psychosis_study/freesurfer51/qdec/3groups/DIAGNOSE_CI_AGE /usr/local/freesurfer/bin/mri_glmfit-sim --glmdir rh_thickness_men_20fwhm_asp_vs_con_controlling_for_IQ_AGE --cache 1.3 abs

$Id: mri_glmfit-sim,v 1.36.2.1 2011/03/28 15:46:10 greve Exp $ Wed Dec 21 15:58:23 CET 2011 Linux neuro3 2.6.27.41-170.2.117.fc10.x86_64 #1 SMP Thu Dec 10 10:36:29 EST 2009 x86_64 x86_64 x86_64 GNU/Linux neuro setenv SUBJECTS_DIR /home/neuro/asperger_psychosis_study/freesurfer51 FREESURFER_HOME /usr/local/freesurfer

Original mri_glmfit command line: cmdline mri_glmfit --glmdir rh_thickness_men_20fwhm_asp_vs_con_controlling_for_IQ_AGE --y rh.thickness.fwhm20.men.age.iq.mgh --fsgd FSGD_1F3L_2C.txt dods --C asp_vs_con_controlling_for_IQ_AGE.txt --surface fsaverage rh

DoSim = 0 UseCache = 1 DoPoll = 0 DoPBSubmit = 0 DoBackground = 0 DiagCluster = 0 gd2mtx = dods fwhm = 31.421003 ERROR: cannot find /usr/local/freesurfer/average/mult-comp-cor/fsaverage/rh/cortex/fwhm31/abs/th13/mc-z.csd

rh.thickness.fwhm20.men.age.iq.mgh was created by (i've attached the pertaining preproc log file): /usr/local/freesurfer/bin/mris_preproc --out rh.thickness.fwhm20.men.age.iq.mgh --target fsaverage --hemi rh --meas thickness --fsgd FSGD_1F3L_2C.txt --fwhm 20

when i create rh.thickness.fwhm25.men.age.iq.mgh (i've attached the pertaining preproc log file) the following command: mri_glmfit-sim --glmdir rh_thickness_men_25fwhm_asp_vs_con_controlling_for_IQ_AGE --cache 1.3 abs

*does* work with output fwhm = 3.015979

what am i doing wrong? thanks,

-joost

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